yybP-ykoY leader

The yybP-ykoY leader RNA element was originally discovered in E. coli during a large scale screen and was named SraF.[1] This family was later found to exist upstream of related families of protein genes in many bacteria, including the yybP and ykoY genes in B. subtilis. The specific functions of these proteins are unknown, but this structured RNA element may be involved in their genetic regulation as a riboswitch.[2] The yybP-ykoY element was later proposed to be manganese-responsive after another associated family of genes, YebN/MntP, was shown to encode Mn2+ efflux pumps in several bacteria.[3][4][5] Genetic data and a crystal structure confirmed that yybp-ykoY is a manganese riboswitch that directly binds Mn2+[6][7]

yybP-ykoY leader
Predicted secondary structure and sequence conservation of yybP-ykoY
Identifiers
SymbolyybP-ykoY
Alt. SymbolsSraF
RfamRF00080
Other data
RNA typeCis-reg; riboswitch
Domain(s)Bacteria
SO0000233
PDB structuresPDBe

References
  1. Argaman L, Hershberg R, Vogel J, Bejerano G, Wagner EG, Margalit H, Altuvia S (June 2001). "Novel small RNA-encoding genes in the intergenic regions of Escherichia coli". Current Biology. 11 (12): 941–950. doi:10.1016/S0960-9822(01)00270-6. PMID 11448770.
  2. Barrick JE, Corbino KA, Winkler WC, Nahvi A, Mandal M, Collins J, Lee M, Roth A, Sudarsan N, Jona I, Wickiser JK, Breaker RR (April 2004). "New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control". Proceedings of the National Academy of Sciences of the United States of America. 101 (17): 6421–6426. doi:10.1073/pnas.0308014101. PMC 404060. PMID 15096624.
  3. Waters LS, Sandoval M, Storz G (November 2011). "The Escherichia coli MntR miniregulon includes genes encoding a small protein and an efflux pump required for manganese homeostasis". Journal of Bacteriology. 193 (21): 5887–5897. doi:10.1128/jb.05872-11. PMC 3194919. PMID 21908668.
  4. Li C, Tao J, Mao D, He C (2011). "A novel manganese efflux system, YebN, is required for virulence by Xanthomonas oryzae pv. oryzae". PLOS ONE. 6 (7): e21983. doi:10.1371/journal.pone.0021983. PMC 3136493. PMID 21789199.
  5. Veyrier FJ, Boneca IG, Cellier MF, Taha MK (September 2011). "A novel metal transporter mediating manganese export (MntX) regulates the Mn to Fe intracellular ratio and Neisseria meningitidis virulence". PLoS Pathogens. 7 (9): e1002261. doi:10.1371/journal.ppat.1002261. PMC 3182930. PMID 21980287.
  6. Price IR, Gaballa A, Ding F, Helmann JD, Ke A (March 2015). "Mn(2+)-sensing mechanisms of yybP-ykoY orphan riboswitches". Molecular Cell. 57 (6): 1110–1123. doi:10.1016/j.molcel.2015.02.016. PMC 4703321. PMID 25794619.
  7. Dambach M, Sandoval M, Updegrove TB, Anantharaman V, Aravind L, Waters LS, Storz G (March 2015). "The ubiquitous yybP-ykoY riboswitch is a manganese-responsive regulatory element". Molecular Cell. 57 (6): 1099–1109. doi:10.1016/j.molcel.2015.01.035. PMC 4376352. PMID 25794618.
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